Strain identifier

BacDive ID: 140945

Type strain: Yes

Species: Bartonella apis

Strain Designation: PEB0122

NCBI tax ID(s): 1686310 (species)

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General

@ref: 66447

BacDive-ID: 140945

DSM-Number: 29779

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, rod-shaped, colony-forming

description: Bartonella apis PEB0122 is a mesophilic, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from The gut of a western honey bee, A. mellifera, from West Haven.

NCBI tax id

  • NCBI tax id: 1686310
  • Matching level: species

doi: 10.13145/bacdive140945.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Bartonellaceae
  • genus: Bartonella
  • species: Bartonella apis
  • full scientific name: Bartonella apis Kešnerová et al. 2016

@ref: 66447

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Bartonellaceae

genus: Bartonella

species: Bartonella apis

full scientific name: Bartonella apis Kešnerová et al. 2016

strain designation: PEB0122

type strain: yes

Morphology

cell morphology

  • @ref: 43837
  • gram stain: negative
  • cell length: 1.2-1.8 µm
  • cell width: 0.5 µm
  • cell shape: rod-shaped

colony morphology

  • @ref: 43837
  • colony size: 0.2-0.4 mm
  • colony color: Opaque-white
  • colony shape: circular
  • incubation period: 2-3 days
  • medium used: TSA supplemented with 5 % defibrinated sheep blood

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43837TSA supplemented with 5 % defibrinated sheep bloodyes
66447COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

  • @ref: 66447
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4383716947citrate-carbon source
4383727897tryptophan-energy source
4383715963ribitol-fermentation
4383717268myo-inositol-fermentation
4383717716lactose-fermentation
4383729864mannitol-fermentation
4383716634raffinose-fermentation
4383726546rhamnose-fermentation
4383717814salicin-fermentation
4383730911sorbitol-fermentation
4383717992sucrose-fermentation
4383722599arabinose+fermentation
4383717234glucose+fermentation
4383718222xylose+fermentation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea+hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
6837717634D-glucose+builds acid from
6837717306maltose-builds acid from
6837717992sucrose-builds acid from
6837727897tryptophan-energy source

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
438376104kanamycinyesyes10 µg (disc)
438376104kanamycinyesyes20 µg (disc)
438376104kanamycinyesyes30 µg (disc)
4383727902tetracyclineyesyes20 µg (disc)
4383727701oxytetracyclineyesyes20 µg (disc)
4383728971ampicillinyesyes20 µg (disc)
4383717698chloramphenicolyesyes20 µg (disc)
4383748923erythromycinyesyes10 µg (disc)
4383748923erythromycinyesyes20 µg (disc)
4383717833gentamicinyesyes10 µg (disc)
4383717833gentamicinyesyes20 µg (disc)
4383728077rifampicinyesyes10 µg (disc)
4383728077rifampicinyesyes20 µg (disc)
4383728077rifampicinyesyes30 µg (disc)
4383717076streptomycinyesyes10 µg (disc)
4383717076streptomycinyesyes20 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
4383715688acetoinno
4383716136hydrogen sulfideno
4383735581indoleno
6837735581indoleno
6836935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testcitrate test
4383715688acetoin-
4383735581indole-
4383716947citrate-
6837735581indole-
6836935581indole-

enzymes

@refvalueactivityec
43837catalase+1.11.1.6
43837cytochrome oxidase+1.9.3.1
43837lysine decarboxylase-4.1.1.18
43837ornithine decarboxylase-4.1.1.17
43837arginine dihydrolase-3.5.3.6
43837beta-galactosidase-3.2.1.23
43837urease+3.5.1.5
43837nitrate reductase+1.7.99.4
43837tryptophan deaminase-4.1.99.1
68377tryptophan deaminase-4.1.99.1
68377proline-arylamidase+3.4.11.5
68377alkaline phosphatase-3.1.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
66447+---+------------+/---

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
66447++---++/---++--
66447-++---++/---++-
66447-++---+---++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
43837The gut of a western honey bee, A. mellifera, from West HavenWest Haven, ConnecticutUSAUSANorth America
66447gut of a Western honey bee Apis melliferaConnecticut, West Haven (41° 15' 28.2'' N, 72° 59' 27.1'' W)USAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Gastrointestinal tract#Stomach

taxonmaps

  • @ref: 69479
  • File name: preview.99_355.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_247;97_270;98_300;99_355&stattab=map
  • Last taxonomy: Bartonella apis subclade
  • 16S sequence: KP987884
  • Sequence Identity:
  • Total samples: 6347
  • soil counts: 1467
  • aquatic counts: 764
  • animal counts: 3728
  • plant counts: 388

Sequence information

16S sequences

  • @ref: 43837
  • description: 16S rRNA gene sequence
  • accession: KP987884
  • database: nuccore

Genome sequences

  • @ref: 66792
  • description: Bartonella apis PEB0122
  • accession: GCA_001952075
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1686310

GC content

@refGC-contentmethod
4383745.5genome sequence analysis
6644745.5sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno89.697no
gram-positiveno97.709yes
anaerobicno97.084no
halophileno75.978no
spore-formingno95.927no
glucose-utilno58.556yes
aerobicyes71.684no
thermophileno84.962no
glucose-fermentno82.682no
motileno59.808no

External links

@ref: 66447

culture collection no.: NCIMB 14961, DSM 29779

straininfo link

  • @ref: 96818
  • straininfo: 405015

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny26537852Bartonella apis sp. nov., a honey bee gut symbiont of the class Alphaproteobacteria.Kesnerova L, Moritz R, Engel PInt J Syst Evol Microbiol10.1099/ijsem.0.0007362015Animals, Bacterial Typing Techniques, Bartonella/*classification/genetics/isolation & purification, Base Composition, Bees/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gastrointestinal Tract/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *SymbiosisGenetics
Pathogenicity34585548Characterization of Biofilm Producer Nanobacteria Isolated from Kidney Stones of Some Egyptian Patients.Fayez Hassan N, Khaled Ibrahim M, Yousef El Tablawy S, Abd Allah Farrag HPak J Biol Sci10.3923/pjbs.2021.953.9702021Biofilms/*growth & development, Calcifying Nanoparticles/*analysis/biosynthesis, Egypt, Humans, Kidney Calculi/*microbiologyPhylogeny

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
43837Lucie Kesnerová Roxane Moritz, Philipp EngelBartonella apis sp. nov., a honey bee gut symbiont of the class Alphaproteobacteria10.1099/ijsem.0.000736IJSEM 66: 414-421 201626537852
66447Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29779Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29779)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
68377Automatically annotated from API NH
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
96818Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID405015.1